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Sébastien Monchy

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Professeur des universités à l’université du Littoral Côte d’Opale

Adresse Contact
Maison de la Recherche en Environnements Naturels Tél : 03 21 99 64 29
32 av. Foch Fax : 03 21 99 64 01
62930 Wimereux, France Email :

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Research topics

- Microbial Ecology

- Exploring eukaryote and prokaryote biodiversity, using molecular and bioinformatics tools.


- 2013 : HDR - Accreditation for professorship (Université du Littoral, France)
- 2007 : PhD in molecular biology and bioinformatics (Université Libre de Bruxelles, Belgique)
- 2001 : Bsc in computer sciences (Université Blaise-Pascal, France)
- 2000 : Msc (DEA) in biology (Université Blaise-Pascal, France)



- Rachik S, Christaki U, Li LL, Genitsaris S, Breton E, Monchy S (2018) Diversity and potential activity patterns of planktonic eukaryotic microbes in a mesoeutrophic coastal area (eastern English Channel). PLoS ONE 13(5) : e0196987

- Landa M, Blain S, Harmand J, Monchy S, Rapaport A, Obernosterer I. (2018) Major changes in the composition of a Southern Ocean bacterial community in response to diatom-derived dissolved organic matter. FEMS Microbiol Ecol. 2018


- Christaki U, Genitsaris S, Monchy S, Li LL, Rachik S, Breton E and Sime-Ngando T (2017) Parasitic Eukaryotes in a Meso-Eutrophic Coastal System with Marked Phaeocystis globosa Blooms. Frontiers in Marine Science, 4:416.

- Denis J., Mahe K., Tavernier E., Monchy S., Vincent D., Vallet C., Marchal P., Antajan E., Caboche J., Lefebvre V., Cordier R., Loot C. (2017) Ontogenetic changes in the larval condition of Downs herring : use of a multi-index approach at an individual scale. Marine Biology, 164:154.

- Cian A, D. El Safadi, M. Osman, R. Moriniere, N. Gantois, S. Benamrouz-Vanneste,P. Delgado-Viscogliosi, K. Guyot, L.L. Li, S. Monchy, C. Noël, P. Poirier, C. Nourrisson,I. Wawrzyniak, F. Delbac, S. Bosc, M. Chabé, T. Petit, G. Certad, E. Viscogliosi. (2017) Molecular Epidemiology of Blastocystis sp. in Various Animal Groups from Two French Zoos and Evaluation of Potential Zoonotic Risk. PLoS One. 12:e0169659.


- Genitsaris S., S. Monchy, E. Breton, E. Lecuyer, U. Christaki (2016) Small-scale variability of protistan planktonic communities relative to environmental pressures and biotic interactions at two adjacent coastal stations. Marine Ecology Progress Series, 548:61-75.

- Landa M., S. Blain, U. Christaki, S. Monchy, I. Obernosterer (2016) Shifts in bacterial community composition associated with increased carbon cycling in a mosaic of phytoplankton blooms. ISME J, 10:39-50

- Voudanta E, Kormas KA, Monchy S, Delegrange A, Vincent D, Genitsaris S, Christaki U. (2016) Mussel biofiltration effects on attached bacteria and unicellular eukaryotes in fish-rearing seawater. PeerJ, 4:e1829.

- Sime-Ngando T, Gerphagnon M, Colombet J, Jobard M, Lefevre E, Monchy S, Rasconi S, Latour D, Carrias JF, Amblard C (2016) Molecular diversity studies in Lake Pavin reveal the ecological importance of parasitic true fungi in the plankton. In : Sime-Ngando T, P Boivin, E Chapron, D Jezequel, M. Meybeck (Editors) - Lac Pavin - History, geology, biogeochemistry, and sedimentology of a deep meromictic maar lake. Springer, The Netherlands.

- Genitsaris S., S. Monchy, J. Denonfoux, S. Ferreira, K.A. Kormas, T. Sime-Ngando, E. Viscogliosi, U. Christaki (2016) Marine microbial community structure assessed from combined metagenomic analysis and ribosomal amplicon deep sequencing. Marine Biology Research, 12(1):30-42.


- Christaki U., C. Georges, S. Genitsaris, S. Monchy (2015) Microzooplankton community associated with phytoplankton blooms in the naturally iron-fertilized Kerguelen area (Southern Ocean). FEMS Microbiology Ecology, 91(7). hal-0127487

- M.T. Duret, M.G. Pachiadaki, F.J. Stewart, N. Sarode, U. Christaki, S. Monchy, V.P. Edgcomb. Size-fractionated diversity of eukaryotic microbial communities in the Eastern North Tropical Pacific oxygen minimum zone. FEMS Microbiology Ecology (IF : 3.875).

- Genitsaris, S. Monchy, E. Viscogliosi, T. Sime-Ngando, S. Ferreira, U. Christaki. Seasonal variations of marine protist community structure based on taxon-specific traits using the eastern English Channel as a model coastal system. FEMS Microbiology Ecology (IF : 3.875).


- C. Georges, S. Monchy, S. Genitsaris, U. Christaki. Protist community composition during early phytoplankton blooms in the naturally iron-fertilized Kerguelen area (Southern Ocean). Biogeosciences (IF : 3.753)

- S Genitsaris, K.A. Kormas, U. Christaki, S. Monchy, M. Moustaka-Gouni. Molecular diversity reveals previously undetected air-dispersed protist colonists in a Mediterranean area. Sci Total Environ Feb 11 ;478C:70-79 (IF : 3.258)

- U. Christaki, K. A. Kormas, S. Genitsaris, C. Georges, T. Sime-Ngando, E. Viscogliosi, S. Monchy. Molecular diversity highlights previously overlooked unicellular eukaryotes in the winter-summer succession of a meso-eutrophic coastal system. Microbial Ecology Jan ;67(1):13-23 (IF : 3.277)


- S. Monchy, J.D. Grattepanche, E. Breton, G. Sanciu, E. Viscogliosi, Dionigia Meloni, Magali Chabé, Laurence Delhaes, T. Sime-Ngando, U. Christaki. Microplanktonic community structure in a coastal system relative to a Phaeocystis blooms inferred from morphological and tag pyrosequencing methods. PLoS ONE 7(6) : e39924. (IF : 4.411)

- L. Delhaes, S. Monchy, E. Fréalle, C. Hubans, J. Salleron, S. Leroy, A. Prevotat, F. Wallet, B. Wallaert, E. Dei-Cas, T. Sime-Ngando, M Chabé, E Viscogliosi. The airway microbiota in cystic fibrosis : a complex fungal and bacterial community - implication for therapeutic management. PLoS ONE 7(4) : e36313. (IF : 4.411)


- S. Monchy, G. Sanciu, M. Jobard, S. Rasconi, M. Gerphagnon, M. Chabé, A. Cian, D. Meloni, N. Niquil, U. Christaki, E. Viscogliosi, T. Sime-Ngando. Exploring and quantifying fungal diversity in freshwater lake ecosystems using rDNA cloning / sequencing and SSU tag pyrosequencing. Environmental Microbiology 13(6):1433-1453. (I.F. : 4.909)

- S. Monchy, X. Wu, S. Taghavi, W. Zhu, J. Ramos, D. van der Lelie. Comparative genomics and functional analysis of niche specific adaptation in Pseudomonas putida. FEMS Microbiol Reviews 5(2):299-323 (IF : 9.783)


- Taghavi S, van der Lelie D, Hoffman A, Zhang YB, Walla MD, Vangronsveld J, Newman L, Monchy S. (2010) Genome sequence of the plant growth promoting endophytic bacterium Enterobacter sp. 638. PLoS Genetic 6(5):e1000943. (IF : 8.883)

- P. Janssen, R. van Houdt, H. Moors, P. Monsieurs, N. Morin, A. Michaux, R. Benotmane, N. Leys, T. Vallaeys, A. Lapidus, S. Monchy, C. Medigue, S. Taghavi, S. McCorkle, J. Dunn, D. van der Lelie, M. Mergeay. The complete genome sequence of Cupriavidus metallidurans strain CH34, a master survivalist in harsh and anthropogenic environments. PLoS ONE 5(5) : e10433. (I.F. : 4.351)


- R. Ryan, S. Monchy, S. Taghavi, L. Crossman, M. Avison, G. Berg, D. van der Lelie, M. Dow. Versatility and adaptation of bacteria from the genus Stenotrophomonas. Nature Review Microbiology 7:514-825 (I.F. : 17.644)

- D. van der Lelie, S. Taghavi, S. Monchy, J. Schwender, L. Miller, R. Ferrieri, A. Rogers, X. Wu, W. Zhu, N. Weyens, J. Vangronsveld, L. Newman. Poplar and its bacterial endophytes : coexistence and harmony. Critical Reviews in Plant Sciences 28(5) (I.F. : 6.206)

- R. Van Houdt, S. Monchy, N. Leys, M. Mergeay. New mobile genetic elements in Cupriavidus metallidurans CH34, their possible roles and occurrence in other bacteria. Antonie Van Leeuwenhoek. 96(2):205-26 (I.F. : 1.673)

- L. L. Li, S.R. McCorkle, S. Monchy, S. Taghavi, D. van der Lelie. Bioprospecting metagenomes : glycosyl hydrolases for converting biomass. Biotechnology for biofuels. 2(1):10 (I.F. : 4.118)

- S. Taghavi, C. Garafola, S. Monchy, L. Newman, A. Hoffman, N. Weyens, T. Barac, J. Vangronsveld, D. van der Lelie. Genome survey and characterization of endophytic bacteria exhibiting a beneficial effect on growth and development of poplar trees. Applied Environmental Microbiology 75(3):748-57 (I.F. : 3.818)


- Y-B. Zhang, S. Monchy, B. Greeberg., M. Mergeay, O. Gang, S.Taghavi, D. van der Lelie. ArsR arsenic-resistance regulatory protein from Cupriavidus metallidurans. Antonie Van Leeuwenhoek. 96(2):161-70 (I.F. : 1.673)

- S. Taghavi, C. Lesaulnier, S. Monchy, R. Wattiez, M. Mergeay, D. van der Lelie. Lead(II) resistance in Cupriavidus metallidurans CH34 : interplay between plasmid and chromosomally-located functions. Antonie Van Leeuwenhoek. 96(2):171-82 (I.F. : 1.673)


- S. Monchy, , M. A. Benotmane, P. Janssen, T. Vallaeys, S. Taghavi, D. van der Lelie, M. Mergeay. Plasmids pMOL28 and pMOL30 of Cupriavidus metallidurans are specialised in the maximal viable response to heavy metals. Journal of Bacteriology 189(20) : 7417-7425. (I.F. : 4.167)


- S. Monchy, R. Benotmane, R. Wattiez, S. van Aelst, V. Auquier, B. Borremans, M. Mergeay, S. Taghavi, N. van der Lelie, T. Vallaeys. Transcriptomic and proteomic analyses of the pMOL30 encoded copper resistance in Cupriavidus metallidurans strain CH34. Microbiology 152(6):1765-76. (I.F. : 3.173)

- S. Monchy, M. Mergeay, A. Bossus, T. Vallaeys. Metal transport ATPase genes from Cupriavidus metallidurans CH34 : a transcriptomic approach. International Journal of Environmental Analytical Chemistry 86(9-10) : 677–692. (I.F. : 1.703)

- R. Idris, M. Kuffner, L. Bodrossy, M. Puschenreiter, S. Monchy, W. W. Wenzel, A. Sessitsch. Characterization of Ni-tolerant methylobacteria associated with the hyperaccumulating plant Thlaspi goesingense and description of Methylobacterium goesingense sp. nov. Systematic and Applied Microbiology 29(8):634-44. (I.F. : 1.914)


- S. Monchy, V. Auquier, S. van Aelst, T. Vallaeys, R. Benotmane, D. van der Lelie, S. Taghavi, R. Wattiez, M. Mergeay. Organisation of heavy metal resistance genes in the four replicons of Ralstonia metallidurans. Proceeding : Plasmid Biology 2004 : International Symposium on Molecular. Plasmid 53 : 39-40, 2005. (I.F. : 0.725)


- Noël-Georis, T. Vallaeys, R. Chauvaux, S. Monchy, P. Falmagne, M. Mergeay, R. Wattiez. Global analysis of the Ralstonia metallidurans proteome : prelude for the large scale study of heavy metal response. Proteomics 4(1):151-79. (I.F. : 5.766)


- M. Mergeay, S. Monchy, A. Benotmane, V. Auquier, T. Vallaeys, P. Bertin, N. Lelie, R. Wattiez. Ralstonia metallidurans, a bacterium specifically adapted to toxic metals : towards a tentative catalogue of metal-responsive genes. FEMS Microbiol Reviews 27(2-3):385-410. (I.F. : 10.16)

- Toussaint, C. Merlin, S. Monchy, R. Benotmane, R. Leplae, A. Coulson, M. Mergeay, D. Springael. The Biphenyl Catabolic Transposon Tn4371, a Member of a New Family of Genomic Islands Related to IncP and Ti Plasmids. Applied and Environmental Microbiology 69(8):4837-45. (I.F. : 3.818)

Book chapter

- P. Bertin, T. Sime-Ngando, D. Debroas, L. Garczarek, D. Le Paslier, R. Marmeisse, S. Monchy, F. Plewniak. Structure et fonctionnement des écosystèmes microbiens : métagénomique et intégration des omiques (Chapitre 10). La génomique environnementale la révolution du séquençage à haut débit. Editor D. Faure et D. Joly. iSTE editions. (2017)

- N. Weyens, S. Monchy, J. Vangronsveld, S. Taghavi, D. van der Lelie. Plant-microbe partnerships for Bioremediation. Handbook of Hydrocarbon and Lipid Microbiology, Timmis, Kenneth N. (Ed.) (2010)

- N. Weyens, S. Monchy, J. Vangronsveld, S. Taghavi, D. van der Lelie. Role of plant-microbe partnerships to deal with environmental problems. Handbook of Hydrocarbon and Lipid Microbiology, Timmis, Kenneth N. (Ed.) (2010)

- M. Mergeay, S. Monchy, P. Janssen, R. Van Houdt, N. Leys. Megaplasmid in Cupriavidus metallidurans genus and metal resistance. Microbiology Monographs, Vol. 11 Schwartz, Edward (Ed.) (2009)